|
| Status |
Public on Jan 01, 2009 |
| Title |
3h post DNA Damage P53 Wt MEFs |
| Sample type |
RNA |
| |
|
| Source name |
P53 Inducible MEFs
|
| Organism |
Mus musculus |
| Characteristics |
CRE-LOX inducible P53 WT cells were exposed to a DNA damaging agent (Doxyrubicin) and profiled across time.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using TRIzol (Invitrogen). The RNA was treated with DNaseI (Roche) before 2ug of each was used to generate cDNA with the Superscript III kit (Invitrogen). Poly-T was used to prime the cDNA synthesis. The cDNA was purified with phenol chloroform isoamyl alcohol and precipitated before being sent to Nimblegen to be analyzed for gene expression.
|
| Label |
Biotin
|
| Label protocol |
Nimblegen ChIP labeling protocol (http://www.nimblegen.com)
|
| |
|
| Hybridization protocol |
Nimblegen Hybridization protocol (http://www.nimblegen.com)
|
| Scan protocol |
Arrays were scanned using AXON 5uM scanner
|
| Description |
Total RNA poly-A labeled RNA were hybridized to custom arrays
|
| Data processing |
Probe signal intensity (ie, Sample VALUEs) obtained using the NimbleScan software provided by Nimblegen. The .gff files (linked below as supplementary files) were also generated with NimbleScan.
|
| |
|
| Submission date |
Nov 29, 2008 |
| Last update date |
Dec 09, 2008 |
| Contact name |
Mitchell Guttman |
| E-mail(s) |
mguttman@mit.edu
|
| Organization name |
Broad Institute
|
| Street address |
7 Cambridge Center
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
| |
|
| Platform ID |
GPL7708 |
| Series (1) |
|
